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dc.contributor.authorHackmann, Timothy J.
dc.contributor.authorNgugi, David
dc.contributor.authorFirkins, Jeffrey L.
dc.contributor.authorTao, Junyi
dc.date.accessioned2017-09-14T06:03:52Z
dc.date.available2017-09-14T06:03:52Z
dc.date.issued2017-09-11
dc.identifier.citationHackmann TJ, Ngugi DK, Firkins JL, Tao J (2017) Genomes of rumen bacteria encode atypical pathways for fermenting hexoses to short-chain fatty acids. Environmental Microbiology. Available: http://dx.doi.org/10.1111/1462-2920.13929.
dc.identifier.issn1462-2912
dc.identifier.pmid28892251
dc.identifier.doi10.1111/1462-2920.13929
dc.identifier.urihttp://hdl.handle.net/10754/625456
dc.description.abstractBacteria have been thought to follow only a few well-recognized biochemical pathways when fermenting glucose or other hexoses. These pathways have been chiseled in the stone of textbooks for decades, with most sources rendering them as they appear in the classic 1986 text by Gottschalk. Still, it is unclear how broadly these pathways apply, given that they were established and delineated biochemically with only a few model organisms. Here we show that well-recognized pathways often cannot explain fermentation products formed by bacteria. In the most extensive analysis of its kind, we reconstructed pathways for glucose fermentation from genomes of 48 species and subspecies of bacteria from one environment (the rumen). In total, 44% of these bacteria had atypical pathways, including several that are completely unprecedented for bacteria or any organism. In detail, 8% of bacteria had an atypical pathway for acetate formation; 21% for propionate or succinate formation; 6% for butyrate formation; and 33% had an atypical or incomplete Embden-Meyerhof-Parnas pathway. This study shows that reconstruction of metabolic pathways-a common goal of omics studies-could be incorrect if well-recognized pathways are used for reference. Further, it calls for renewed efforts to delineate fermentation pathways biochemically. This article is protected by copyright. All rights reserved.
dc.description.sponsorshipWe thank G. Suen (University of Wisconsin-Madison), A. Neumann (University of Wisconsin-Madison), and P. Weimer (USDA-ARS, Madison, WI) for conservations on missing pyruvate kinase in Fibrobacter. We also thank S. Hackmann (University of Florida) for reviewing the manuscript. This work was supported by U.S. Department of Agriculture (USDA) National Institute of Food and Agriculture (NIFA) Hatch Project FLA-ANS-005307 and USDA-NIFA Hatch/Multi-State Project FLA-ANS-005304.
dc.publisherWiley
dc.relation.urlhttp://onlinelibrary.wiley.com/doi/10.1111/1462-2920.13929/abstract
dc.rightsThis is the peer reviewed version of the following article: Genomes of rumen bacteria encode atypical pathways for fermenting hexoses to short-chain fatty acids, which has been published in final form at http://doi.org/10.1111/1462-2920.13929. This article may be used for non-commercial purposes in accordance With Wiley Terms and Conditions for self-archiving.
dc.titleGenomes of rumen bacteria encode atypical pathways for fermenting hexoses to short-chain fatty acids
dc.typeArticle
dc.contributor.departmentRed Sea Research Center (RSRC)
dc.identifier.journalEnvironmental Microbiology
dc.eprint.versionPost-print
dc.contributor.institutionDepartment of Animal Science; University of Florida, P.O. Box 110910; Gainesville Florida 32611 USA
dc.contributor.institutionDepartment of Animal Science; The Ohio State University, 2029 Fyffe Rd; Columbus Ohio 43210 USA
kaust.personNgugi, David


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